Difference between revisions of "Team:Edinburgh UG/Design"

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{{Edinburgh_UG}}
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#REDIRECT [[https://2017.igem.org/Team:Edinburgh_UG/Team]]
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    <link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.7/css/bootstrap.min.css">
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    <link rel="stylesheet" href="https://2017.igem.org/Template:Edinburgh_UG/CSS?action=raw&amp;ctype=text/css">
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        MathJax.Hub.Config({tex2jax: {inlineMath: [['$','$'], ['\\(','\\)']]}});
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<h1>Design</h1>
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Design is the first step in the design-build-test cycle in engineering and synthetic biology. Use this page to describe the process that you used in the design of your parts. You should clearly explain the engineering principles used to design your project.
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This page is different to the "Applied Design Award" page. Please see the <a href="https://2017.igem.org/Team:Edinburgh_UG/Applied_Design">Applied Design</a> page for more information on how to compete for that award.
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<h5>What should this page contain?</h5>
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<li>Explanation of the engineering principles your team used in your design</li>
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<li>Discussion of the design iterations your team went through</li>
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<li>Experimental plan to test your designs</li>
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<h5>Inspiration</h5>
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<li><a href="https://2016.igem.org/Team:MIT/Experiments/Promoters">2016 MIT</a></li>
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<li><a href="https://2016.igem.org/Team:BostonU/Proof">2016 BostonU</a></li>
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<li><a href="https://2016.igem.org/Team:NCTU_Formosa/Design">2016 NCTU Formosa</a></li>
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            <h1 style="font-size: 60px; text-align: center; margin-top: 0; padding-top: 0;"> Design </h1> <br><br><br><br>
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            <p> In our project, we view a single recombinase and a pair of its target site as a functional unit for building
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                dynamic switches. With this concept in mind, we designed more sophisticated composite parts such as the measurement
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                devices, gene randomizer, logic gates, and pulse generator. </p>
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            <h2 class="header-subsection"> Measurement devices </h2><br>
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            <p>To quantify orthogonality and recombination efficiency, we have designed simple measurement devices to characterize
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                our basic parts – the five recombinases (Cre, Dre, VCre, SCre, Vika) and their target sites (LoxP, Rox, Vlox,
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                Slox, Vox). They are a set of fifteen biobricks that have a target sites-flanked transcriptional terminator
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                inserted between a constitutive promoter and a RFP:</p> <br>
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            <div style="text-align: center;"><img src="https://static.igem.org/mediawiki/2017/7/71/T--Edinburgh_UG--design_measurement_device.png"></div><br>
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            <p>Thus, when recombination occurred, the transcriptional terminator will be excised, expressing the RFP. We propose
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                to use this set of device and our protocol for standardized measurement of recombination progression using
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                plate reader.</p>
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            <h2 class="header-subsection"> Pulse generator </h2><br>
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            <p>Aware of the potential for SSR to mediate genetic engineering in a highly dynamic way, we have designed a novel
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                construct that once initiate, will express multiple genes in separated pulses of transcription and translation.</p>
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                            <img src="https://static.igem.org/mediawiki/2017/3/31/T--Edinburgh_UG--pulse_generator.png" alt="Slide 1" />
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                            <img src="https://static.igem.org/mediawiki/2017/f/f5/T--Edinburgh_UG--pulse_generator2.png" alt="Slide 2" />
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                            <img src="https://static.igem.org/mediawiki/2017/6/67/T--Edinburgh_UG--pulse_generator3.png" alt="Slide 3" />
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                            <img src="https://static.igem.org/mediawiki/2017/a/ab/T--Edinburgh_UG--pulse_generator4.png" alt="Slide 4" />
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                            <img src="https://static.igem.org/mediawiki/2017/7/73/T--Edinburgh_UG--pulse_generator5.png" alt="Slide 5" />
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                            <img src="https://static.igem.org/mediawiki/2017/4/4f/T--Edinburgh_UG--pulse_generator6.png" alt="Slide 6" />
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            <p>The functionality of the pulse generator has been simulated in the <a href="https://2017.igem.org/Team:Edinburgh_UG/Model"> model page </a>,
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                where we have performed stochastic modeling and used it to predict the behavior of the pulse generator in
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                different conditions. The pulse generator may find applications in metabolic engineering, where one can separate
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                temporally the expression of several genes, thus lowering the metabolic stress of a cell (1).</p>
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{{:Team:Edinburgh_UG/Templates/Footer}}

Revision as of 04:42, 31 October 2017





Design





In our project, we view a single recombinase and a pair of its target site as a functional unit for building dynamic switches. With this concept in mind, we designed more sophisticated composite parts such as the measurement devices, gene randomizer, logic gates, and pulse generator.

Measurement devices


To quantify orthogonality and recombination efficiency, we have designed simple measurement devices to characterize our basic parts – the five recombinases (Cre, Dre, VCre, SCre, Vika) and their target sites (LoxP, Rox, Vlox, Slox, Vox). They are a set of fifteen biobricks that have a target sites-flanked transcriptional terminator inserted between a constitutive promoter and a RFP:



Thus, when recombination occurred, the transcriptional terminator will be excised, expressing the RFP. We propose to use this set of device and our protocol for standardized measurement of recombination progression using plate reader.

Pulse generator


Aware of the potential for SSR to mediate genetic engineering in a highly dynamic way, we have designed a novel construct that once initiate, will express multiple genes in separated pulses of transcription and translation.

The functionality of the pulse generator has been simulated in the model page , where we have performed stochastic modeling and used it to predict the behavior of the pulse generator in different conditions. The pulse generator may find applications in metabolic engineering, where one can separate temporally the expression of several genes, thus lowering the metabolic stress of a cell (1).